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1SJM
Asym. Unit
Info
Asym.Unit (359 KB)
Biol.Unit 1 (352 KB)
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(1)
Title
:
NITRITE BOUND COPPER CONTAINING NITRITE REDUCTASE
Authors
:
E. I. Tocheva, F. I. Rosell, A. G. Mauk, M. E. P. Murphy
Date
:
03 Mar 04 (Deposition) - 22 Jun 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.40
Chains
:
Asym. Unit : A,B,C
Biol. Unit 1: A,B,C (1x)
Keywords
:
Copper, Nitrite, Oxidoreductase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
E. I. Tocheva, F. I. Rosell, A. G. Mauk, M. E. Murphy
Side-On Copper-Nitrosyl Coordination By Nitrite Reductase.
Science V. 304 867 2004
(for further references see the
PDB file header
)
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Hetero Components
(4, 15)
Info
All Hetero Components
1a: ACETATE ION (ACTa)
1b: ACETATE ION (ACTb)
1c: ACETATE ION (ACTc)
1d: ACETATE ION (ACTd)
1e: ACETATE ION (ACTe)
2a: COPPER (II) ION (CUa)
2b: COPPER (II) ION (CUb)
2c: COPPER (II) ION (CUc)
2d: COPPER (II) ION (CUd)
2e: COPPER (II) ION (CUe)
2f: COPPER (II) ION (CUf)
3a: NITRITE ION (NO2a)
3b: NITRITE ION (NO2b)
3c: NITRITE ION (NO2c)
4a: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,... (TRSa)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ACT
5
Ligand/Ion
ACETATE ION
2
CU
6
Ligand/Ion
COPPER (II) ION
3
NO2
3
Ligand/Ion
NITRITE ION
4
TRS
1
Ligand/Ion
2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
[
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Sites
(15, 15)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
HIS A:95 , CYS A:136 , HIS A:145 , MET A:150
BINDING SITE FOR RESIDUE CU A 1501
02
AC2
SOFTWARE
HIS A:100 , HIS A:135 , NO2 A:1503 , HIS B:306
BINDING SITE FOR RESIDUE CU A 1502
03
AC3
SOFTWARE
ASP A:98 , HIS A:100 , HIS A:135 , CU A:1502 , HOH A:5698 , HOH A:5728 , HIS B:255 , ILE B:257 , HIS B:306 , LEU B:308
BINDING SITE FOR RESIDUE NO2 A 1503
04
AC4
SOFTWARE
GLU A:313 , GLY C:140 , MET C:141 , VAL C:142 , PRO C:143 , TRP C:144
BINDING SITE FOR RESIDUE ACT C 1504
05
AC5
SOFTWARE
HIS B:95 , CYS B:136 , HIS B:145 , MET B:150
BINDING SITE FOR RESIDUE CU B 2501
06
AC6
SOFTWARE
ASP B:98 , HIS B:100 , HIS B:135 , NO2 B:2503 , HIS C:306
BINDING SITE FOR RESIDUE CU B 2502
07
AC7
SOFTWARE
ASP B:98 , HIS B:100 , HIS B:135 , CU B:2502 , HOH B:5716 , HIS C:255 , ILE C:257 , HIS C:306 , LEU C:308
BINDING SITE FOR RESIDUE NO2 B 2503
08
AC8
SOFTWARE
GLY A:140 , MET A:141 , VAL A:142 , PRO A:143 , TRP A:144 , TYR A:203 , VAL A:207 , MET A:210 , GLU B:313 , GLU B:325
BINDING SITE FOR RESIDUE ACT A 2504
09
AC9
SOFTWARE
THR B:228 , GLY B:229 , HIS B:319
BINDING SITE FOR RESIDUE ACT B 2505
10
BC1
SOFTWARE
HIS C:95 , CYS C:136 , HIS C:145 , MET C:150
BINDING SITE FOR RESIDUE CU C 3501
11
BC2
SOFTWARE
HIS A:306 , HIS C:100 , HIS C:135 , NO2 C:3503
BINDING SITE FOR RESIDUE CU C 3502
12
BC3
SOFTWARE
HIS A:255 , ILE A:257 , HIS A:306 , LEU A:308 , ASP C:98 , HIS C:100 , HIS C:135 , CU C:3502 , HOH C:3675
BINDING SITE FOR RESIDUE NO2 C 3503
13
BC4
SOFTWARE
GLY B:140 , MET B:141 , VAL B:142 , PRO B:143 , TRP B:144 , MET B:210 , GLU C:313
BINDING SITE FOR RESIDUE ACT B 3504
14
BC5
SOFTWARE
HOH B:5564 , HOH B:5776 , HOH B:5791 , HOH B:5795
BINDING SITE FOR RESIDUE ACT B 5556
15
BC6
SOFTWARE
THR A:212 , LEU A:213 , THR A:214 , HOH A:5762 , HOH A:5826 , HOH A:5837 , THR B:212 , LEU B:213 , THR B:214 , THR C:212 , LEU C:213 , THR C:214
BINDING SITE FOR RESIDUE TRS A 5551
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
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Sorry, no Info available
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Exons
(0, 0)
Info
All Exons
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 6)
Info
All SCOP Domains
1a: SCOP_d1sjma1 (A:5-166)
1b: SCOP_d1sjmc1 (C:5-166)
1c: SCOP_d1sjmc2 (C:167-339)
1d: SCOP_d1sjma2 (A:167-339)
1e: SCOP_d1sjmb1 (B:5-166)
1f: SCOP_d1sjmb2 (B:167-339)
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(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
Cupredoxin-like
(545)
Superfamily
:
Cupredoxins
(543)
Family
:
Multidomain cupredoxins
(146)
Protein domain
:
Nitrite reductase, NIR
(79)
Alcaligenes faecalis, strain s-6 [TaxId: 511]
(31)
1a
d1sjma1
A:5-166
1b
d1sjmc1
C:5-166
1c
d1sjmc2
C:167-339
1d
d1sjma2
A:167-339
1e
d1sjmb1
B:5-166
1f
d1sjmb2
B:167-339
[
close SCOP info
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CATH Domains
(1, 6)
Info
all CATH domains
1a: CATH_1sjmA01 (A:11-158)
1b: CATH_1sjmB01 (B:11-158)
1c: CATH_1sjmA02 (A:159-325)
1d: CATH_1sjmB02 (B:159-325)
1e: CATH_1sjmC02 (C:159-325)
1f: CATH_1sjmC01 (C:11-158)
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)
Organisms
(
)
(
)
Class
:
Mainly Beta
(13760)
Architecture
:
Sandwich
(5577)
Topology
:
Immunoglobulin-like
(3897)
Homologous Superfamily
:
Cupredoxins - blue copper proteins
(420)
Alcaligenes faecalis. Organism_taxid: 511.
(13)
1a
1sjmA01
A:11-158
1b
1sjmB01
B:11-158
1c
1sjmA02
A:159-325
1d
1sjmB02
B:159-325
1e
1sjmC02
C:159-325
1f
1sjmC01
C:11-158
[
close CATH info
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Pfam Domains
(2, 6)
Info
all PFAM domains
1a: PFAM_Cu_oxidase_1sjmC01 (C:174-326)
1b: PFAM_Cu_oxidase_1sjmC02 (C:174-326)
1c: PFAM_Cu_oxidase_1sjmC03 (C:174-326)
2a: PFAM_Cu_oxidase_3_1sjmC04 (C:44-161)
2b: PFAM_Cu_oxidase_3_1sjmC05 (C:44-161)
2c: PFAM_Cu_oxidase_3_1sjmC06 (C:44-161)
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Clans
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Families
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(
)
Organisms
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)
(
)
Clan
:
CU_oxidase
(192)
Family
:
Cu-oxidase
(74)
Alcaligenes faecalis
(18)
1a
Cu-oxidase-1sjmC01
C:174-326
1b
Cu-oxidase-1sjmC02
C:174-326
1c
Cu-oxidase-1sjmC03
C:174-326
Family
:
Cu-oxidase_3
(79)
Alcaligenes faecalis
(18)
2a
Cu-oxidase_3-1sjmC04
C:44-161
2b
Cu-oxidase_3-1sjmC05
C:44-161
2c
Cu-oxidase_3-1sjmC06
C:44-161
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Asymmetric Unit 1
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